1 HOK comparison of CASAL and Casal2 model configurations

This document compares the results of at least 2 CASAL model configurations (base and at least one sensitivity) and up to 6 Casal2 model configurations (3 BetaDiff and 3 ADOL-C).

The CASAL model sensitivity 1 has a smaller minimisation tolerance value than the CASAL base model (1e-9 vs. 1e-6).

The Casal2 ADOL-C and BetaDiff low tolerance models have a smaller tolerance value than the CASAL base model (1e-9 vs. 1e-6).

1.1 HOK model characteristics

The main characteristics of the Test Case HOK (hoki) CASAL model are:

  • one stock, ages 1 - 17
  • one area, although many characteristics are separated into “east” and “west”
  • years 1972 - 2018, projection years 2019 - 2023
  • five time steps: Oct_Nov, Dec_Mar, Apr_Jun, End_Jun, and Jul_Sep
  • five stock categories: west.sa, east.cr, west.cr, west.wc, and east.cs (labeled “stock.area”)
  • five migration processes, which have age-specific proportions specified
  • sex-specific natural mortality-at-age is double exponential
  • area-specific von Bertalanffy age-length relationship
  • area-specific length-weight relationship (\(W = aL^b\))
  • area-specific Beverton-Holt stock-recruitment relationships, with steepness (h) 0.75
  • ageing error is specified
  • surveys with double normal selectivity
  • six area-specific fisheries with double normal selectivity

Observation data include:

  • survey indices
  • survey proportions-at-age
  • fishery proportions-at-age

Parameters estimated include:

  • area-specific B0
  • parameters for the natural mortality-at-age ogive
  • catchability (q) for the surveys
  • parameters for the selectivity curves for the surveys
  • parameters for the selectivity curves for the fisheries
  • migration proportions by age
  • area-specific YCS (recruitment deviations)

1.2 R environment

## [1] "Mon Sep 27 11:39:14 2021"
## R version 3.6.3 (2020-02-29)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Debian GNU/Linux 11 (bullseye)
## 
## Matrix products: default
## BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
## 
## locale:
##  [1] LC_CTYPE=en_NZ.UTF-8       LC_NUMERIC=C              
##  [3] LC_TIME=en_NZ.UTF-8        LC_COLLATE=en_NZ.UTF-8    
##  [5] LC_MONETARY=en_NZ.UTF-8    LC_MESSAGES=en_NZ.UTF-8   
##  [7] LC_PAPER=en_NZ.UTF-8       LC_NAME=C                 
##  [9] LC_ADDRESS=C               LC_TELEPHONE=C            
## [11] LC_MEASUREMENT=en_NZ.UTF-8 LC_IDENTIFICATION=C       
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## other attached packages:
##  [1] Casal2_21.08   casal_2.30     devtools_2.4.2 usethis_2.0.1  rlist_0.4.6.2 
##  [6] ggthemes_4.2.4 gridExtra_2.3  coda_0.19-4    ggmcmc_1.5.1.1 ggplot2_3.3.5 
## [11] tidyr_1.1.3    huxtable_5.4.0 dplyr_1.0.7    plyr_1.8.6    
## 
## loaded via a namespace (and not attached):
##  [1] Rcpp_1.0.7         lattice_0.20-41    prettyunits_1.1.1  ps_1.6.0          
##  [5] assertthat_0.2.1   rprojroot_2.0.2    digest_0.6.27      utf8_1.2.2        
##  [9] R6_2.5.1           evaluate_0.14      pillar_1.6.2       rlang_0.4.11      
## [13] rstudioapi_0.13    data.table_1.14.0  callr_3.7.0        jquerylib_0.1.4   
## [17] rmarkdown_2.11     desc_1.3.0         stringr_1.4.0      munsell_0.5.0     
## [21] compiler_3.6.3     xfun_0.26          pkgconfig_2.0.3    pkgbuild_1.2.0    
## [25] htmltools_0.5.2    tidyselect_1.1.1   tibble_3.1.4       reshape_0.8.8     
## [29] fansi_0.5.0        crayon_1.4.1       withr_2.4.2        grid_3.6.3        
## [33] jsonlite_1.7.2     GGally_2.1.2       gtable_0.3.0       lifecycle_1.0.0   
## [37] DBI_1.1.1          magrittr_2.0.1     scales_1.1.1       cli_3.0.1         
## [41] stringi_1.7.4      cachem_1.0.6       remotes_2.4.0      fs_1.5.0          
## [45] testthat_3.0.4     bslib_0.3.0        ellipsis_0.3.2     generics_0.1.0    
## [49] vctrs_0.3.8        RColorBrewer_1.1-2 tools_3.6.3        glue_1.4.2        
## [53] purrr_0.3.4        processx_3.5.2     pkgload_1.2.2      fastmap_1.1.0     
## [57] yaml_2.2.1         colorspace_2.0-2   sessioninfo_1.1.1  memoise_2.0.0     
## [61] knitr_1.34         sass_0.4.0

1.3 CASAL and Casal2 model output

source('../../R-functions/report_read_in_CASAL_MPD_files.R')
source('../../R-functions/report_read_in_Casal2_MPD_files.R')

1.4 Tables

Tables of parameter estimates and objective function components for the CASAL and Casal2 model MPD results

CASAL parameter estimates
rownamesBase_ModelSensitivity_1Percent_Diff
q[CSacous].q               0.431200.431200.000
q[WCacous].q               0.300300.300200.033
q[CRsum].q               0.074310.074310.000
q[SAsum].q               0.059250.059250.000
q[SAaut].q               0.067170.067170.000
relative_abundance[CRsumbio].cv_process_error0.140500.140500.000
relative_abundance[SAsumbio].cv_process_error0.430600.430600.000
log_B0_total                 14.3400014.340000.000
B0_prop_stock1                 0.328700.328700.000
natural_mortality.all             0.296000.296000.000
selectivity[Wspsl].shift_a         -0.21740-0.217400.000
recruitment[E].YCS1            0.447800.447800.000
recruitment[E].YCS2            0.726800.726800.000
recruitment[E].YCS3            0.784500.784500.000
recruitment[E].YCS4            1.360001.360000.000
recruitment[E].YCS5            0.987700.98780-0.010
recruitment[E].YCS6            0.329300.329300.000
recruitment[E].YCS7            0.447200.447200.000
recruitment[E].YCS8            0.265600.265600.000
recruitment[E].YCS9            0.434200.434200.000
recruitment[E].YCS10           0.488000.488000.000
recruitment[E].YCS11           0.395700.395700.000
recruitment[E].YCS12           0.217900.217900.000
recruitment[E].YCS13           1.036001.036000.000
recruitment[E].YCS14           0.958900.958900.000
recruitment[E].YCS15           0.429000.429000.000
recruitment[E].YCS16           0.138100.138100.000
recruitment[E].YCS17           0.375000.375000.000
recruitment[E].YCS18           0.391700.391600.026
recruitment[E].YCS19           0.383100.383100.000
recruitment[E].YCS20           0.562900.562900.000
recruitment[E].YCS21           0.264000.264000.000
recruitment[E].YCS22           0.284500.284500.000
recruitment[E].YCS23           0.450000.450000.000
recruitment[E].YCS24           0.253100.253100.000
recruitment[E].YCS25           0.060000.060000.000
recruitment[E].YCS26           0.462200.462200.000
recruitment[E].YCS27           0.161600.161600.000
recruitment[E].YCS28           0.266900.266900.000
recruitment[E].YCS29           0.500400.500400.000
recruitment[E].YCS30           0.520000.520000.000
recruitment[E].YCS31           0.508800.508800.000
recruitment[E].YCS32           0.600600.600600.000
recruitment[E].YCS33           0.522100.522100.000
recruitment[E].YCS34           0.373000.373000.000
recruitment[E].YCS35           0.526800.526800.000
recruitment[E].YCS36           0.158600.158600.000
recruitment[E].YCS37           0.660600.660600.000
recruitment[E].YCS38           0.156000.156000.000
recruitment[E].YCS39           0.185800.185800.000
recruitment[E].YCS40           0.730600.730600.000
recruitment[E].YCS41           0.739100.739000.014
recruitment[E].YCS42           1.195001.195000.000
recruitment[W].YCS1            0.457000.457000.000
recruitment[W].YCS2            0.822200.822200.000
recruitment[W].YCS3            0.670000.670000.000
recruitment[W].YCS4            0.653900.653900.000
recruitment[W].YCS5            0.465900.465900.000
recruitment[W].YCS6            0.515100.515100.000
recruitment[W].YCS7            0.578200.578200.000
recruitment[W].YCS8            0.473300.473300.000
recruitment[W].YCS9            0.871900.871900.000
recruitment[W].YCS10           0.836400.83650-0.012
recruitment[W].YCS11           0.320200.320200.000
recruitment[W].YCS12           0.165000.165000.000
recruitment[W].YCS13           1.476001.476000.000
recruitment[W].YCS14           0.772700.77280-0.013
recruitment[W].YCS15           0.081350.081350.000
recruitment[W].YCS16           0.081580.081580.000
recruitment[W].YCS17           0.892800.892800.000
recruitment[W].YCS18           1.268001.268000.000
recruitment[W].YCS19           0.377200.377200.000
recruitment[W].YCS20           0.959400.959400.000
recruitment[W].YCS21           0.221100.221100.000
recruitment[W].YCS22           0.197200.197200.000
recruitment[W].YCS23           0.237900.23800-0.042
recruitment[W].YCS24           0.202900.202900.000
recruitment[W].YCS25           0.060000.060000.000
recruitment[W].YCS26           0.373000.373000.000
recruitment[W].YCS27           0.095480.095480.000
recruitment[W].YCS28           0.795600.795600.000
recruitment[W].YCS29           0.465200.465200.000
recruitment[W].YCS30           0.516600.516600.000
recruitment[W].YCS31           0.511300.511300.000
recruitment[W].YCS32           0.755400.755400.000
recruitment[W].YCS33           0.638900.638900.000
recruitment[W].YCS34           0.616900.616900.000
recruitment[W].YCS35           0.578400.578400.000
recruitment[W].YCS36           0.145500.145500.000
recruitment[W].YCS37           0.974800.974800.000
recruitment[W].YCS38           0.160200.160200.000
recruitment[W].YCS39           0.244400.244400.000
recruitment[W].YCS40           2.197002.197000.000
recruitment[W].YCS41           2.152002.152000.000
recruitment[W].YCS42           1.195001.195000.000
migration[Whome].rates_all1      0.327800.327800.000
migration[Whome].rates_all2      0.307800.307800.000
migration[Whome].rates_all3      0.476200.476200.000
migration[Whome].rates_all4      0.141800.141800.000
migration[Whome].rates_all5      0.468500.468400.021
migration[Whome].rates_all6      0.749800.75030-0.067
migration[Whome].rates_all7      0.794700.788400.793
migration[Whome].rates_all8      1.000001.000000.000
migration[Espmg].rates_all1      0.005660.005660.000
migration[Espmg].rates_all2      0.160200.160200.000
migration[Espmg].rates_all3      0.324100.324100.000
migration[Espmg].rates_all4      0.431200.431200.000
migration[Espmg].rates_all5      0.385500.385500.000
migration[Espmg].rates_all6      0.465400.465300.021
migration[Espmg].rates_all7      0.599000.599000.000
migration[Espmg].rates_all8      0.607800.607800.000
migration[Wspmg].rates_all1      0.106100.106100.000
migration[Wspmg].rates_all2      0.287700.287700.000
migration[Wspmg].rates_all3      0.270800.270800.000
migration[Wspmg].rates_all4      0.455300.455300.000
migration[Wspmg].rates_all5      0.484700.484700.000
migration[Wspmg].rates_all6      0.527100.527100.000
migration[Wspmg].rates_all7      0.660600.660600.000
migration[Wspmg].rates_all8      0.596300.596300.000
selectivity[Enspsl].all1            3.567003.567000.000
selectivity[Enspsl].all2            1.221001.221000.000
selectivity[Enspsl].all3            15.7100015.710000.000
selectivity[Wnspsl].all1            5.341005.341000.000
selectivity[Wnspsl].all2            2.839002.839000.000
selectivity[Wnspsl].all3            13.3800013.380000.000
selectivity[Espsl].all1            10.8800010.880000.000
selectivity[Espsl].all2            11.6800011.680000.000
selectivity[Espsl].all3            3.982003.982000.000
selectivity[CRsl].all1            1.000001.000000.000
selectivity[CRsl].all2            1.000001.000000.000
selectivity[CRsl].all3            9.300009.300000.000
selectivity[SAsl].all1            14.2500014.250000.000
selectivity[SAsl].all2            8.755008.75600-0.011
selectivity[SAsl].all3            1.315001.315000.000
Casal2 parameter estimates
rownamesbetadiff_casal_flags_onbetadiff_casal_flags_offbetadiff_casal_flags_on_low_toladolc_casal_flags_onadolc_casal_flags_offadolc_casal_flags_on_low_tol
catchability[CSacous].q               0.427240.427240.431160.436200.437590.43620
catchability[WCacous].q               0.312840.312840.300240.279350.278650.27935
catchability[CRsum].q               0.068320.068320.074310.078820.078100.07882
catchability[SAsum].q               0.067170.067170.059250.046820.046720.04682
catchability[SAaut].q               0.075780.075780.067170.050690.050560.05069
observation[CRsumbio].process_error   0.140940.140940.140480.149880.150020.14988
observation[SAsumbio].process_error   0.423640.423640.430610.407190.407680.40719
process[recruit_E].b0              548395.00000548396.00000555125.00000563986.00000561577.00000563986.00000
process[recruit_W].b0              1082670.000001082670.000001133680.000001221080.000001221480.000001221080.00000
process[Instant_mortality].m{west.sa}             0.312710.312710.295980.270600.271540.27060
time_varying[shifted_mu].a               -0.22921-0.22921-0.21744-0.17152-0.17186-0.17152
process[recruit_E].ycs_values{1975}0.445370.445370.447820.441670.443180.44167
process[recruit_E].ycs_values{1976}0.729390.729390.726800.705740.707660.70574
process[recruit_E].ycs_values{1977}0.792310.792310.784540.758840.760470.75884
process[recruit_E].ycs_values{1978}1.386441.386441.360011.303031.305191.30303
process[recruit_E].ycs_values{1979}1.002651.002650.987760.951020.954190.95102
process[recruit_E].ycs_values{1980}0.334370.334370.329320.319780.319300.31978
process[recruit_E].ycs_values{1981}0.455020.455020.447230.431680.432090.43168
process[recruit_E].ycs_values{1982}0.269740.269740.265560.257580.257610.25758
process[recruit_E].ycs_values{1983}0.441060.441060.434180.421060.421580.42106
process[recruit_E].ycs_values{1984}0.494120.494120.488040.476140.476030.47614
process[recruit_E].ycs_values{1985}0.400100.400100.395700.387000.386910.38700
process[recruit_E].ycs_values{1986}0.219780.219780.217910.213740.214220.21374
process[recruit_E].ycs_values{1987}1.041311.041311.036401.017081.015311.01708
process[recruit_E].ycs_values{1988}0.963460.963460.958910.930100.929260.93010
process[recruit_E].ycs_values{1989}0.430950.430950.428990.426370.426570.42637
process[recruit_E].ycs_values{1990}0.137970.137970.138100.139280.139240.13928
process[recruit_E].ycs_values{1991}0.373850.373850.375000.370960.369610.37096
process[recruit_E].ycs_values{1992}0.388580.388580.391640.388240.386680.38824
process[recruit_E].ycs_values{1993}0.379950.379950.383100.389620.389120.38962
process[recruit_E].ycs_values{1994}0.557940.557940.562850.552220.550370.55222
process[recruit_E].ycs_values{1995}0.261780.261780.263990.266260.265980.26626
process[recruit_E].ycs_values{1996}0.282510.282510.284470.289080.288760.28908
process[recruit_E].ycs_values{1997}0.447810.447810.450030.451140.450420.45114
process[recruit_E].ycs_values{1998}0.252640.252640.253070.251520.251060.25152
process[recruit_E].ycs_values{1999}0.060000.060000.060000.060480.060440.06048
process[recruit_E].ycs_values{2000}0.460130.460130.462200.464740.463870.46474
process[recruit_E].ycs_values{2001}0.160860.160860.161650.164980.164780.16498
process[recruit_E].ycs_values{2002}0.266110.266110.266890.265510.264080.26551
process[recruit_E].ycs_values{2003}0.499590.499590.500380.505970.505490.50597
process[recruit_E].ycs_values{2004}0.520530.520530.520030.525180.524340.52518
process[recruit_E].ycs_values{2005}0.507640.507640.508820.516770.516270.51677
process[recruit_E].ycs_values{2006}0.600130.600130.600550.607900.607320.60790
process[recruit_E].ycs_values{2007}0.520880.520870.522150.539990.539770.53999
process[recruit_E].ycs_values{2008}0.371150.371150.373000.375970.374470.37597
process[recruit_E].ycs_values{2009}0.527900.527900.526810.548320.548130.54832
process[recruit_E].ycs_values{2010}0.156950.156950.158640.165200.165160.16520
process[recruit_E].ycs_values{2011}0.660470.660470.660580.682090.681520.68209
process[recruit_E].ycs_values{2012}0.155540.155540.156000.161730.161980.16173
process[recruit_E].ycs_values{2013}0.185180.185180.185840.193300.192920.19330
process[recruit_E].ycs_values{2014}0.728440.728440.730620.770240.770170.77024
process[recruit_E].ycs_values{2015}0.755860.755870.739000.683980.679240.68398
process[recruit_E].ycs_values{2016}1.188861.188861.195151.318211.319211.31821
process[recruit_W].ycs_values{1975}0.458690.458690.457020.475530.474020.47553
process[recruit_W].ycs_values{1976}0.814220.814220.822180.840900.843410.84090
process[recruit_W].ycs_values{1977}0.685150.685150.670000.667150.666880.66715
process[recruit_W].ycs_values{1978}0.669370.669370.653900.650970.649550.65097
process[recruit_W].ycs_values{1979}0.473070.473070.465900.466510.468030.46651
process[recruit_W].ycs_values{1980}0.520640.520640.515120.521250.520100.52125
process[recruit_W].ycs_values{1981}0.583440.583440.578240.588250.587910.58825
process[recruit_W].ycs_values{1982}0.474620.474620.473280.482980.482900.48298
process[recruit_W].ycs_values{1983}0.873090.873090.871920.898390.897650.89839
process[recruit_W].ycs_values{1984}0.836330.836330.836460.868880.868460.86888
process[recruit_W].ycs_values{1985}0.319420.319420.320240.331290.332180.33129
process[recruit_W].ycs_values{1986}0.164930.164930.164970.168710.169030.16871
process[recruit_W].ycs_values{1987}1.480071.480071.475551.555981.555121.55598
process[recruit_W].ycs_values{1988}0.774540.774540.772760.808900.810640.80890
process[recruit_W].ycs_values{1989}0.081480.081480.081340.081470.081390.08147
process[recruit_W].ycs_values{1990}0.081830.081830.081580.080380.081520.08038
process[recruit_W].ycs_values{1991}0.891970.891970.892800.850720.852830.85072
process[recruit_W].ycs_values{1992}1.267571.267581.267781.251601.250741.25160
process[recruit_W].ycs_values{1993}0.376520.376520.377220.375480.375180.37548
process[recruit_W].ycs_values{1994}0.955790.955790.959390.994010.993340.99401
process[recruit_W].ycs_values{1995}0.220260.220260.221130.221830.221550.22183
process[recruit_W].ycs_values{1996}0.196320.196320.197180.186940.186930.18694
process[recruit_W].ycs_values{1997}0.236430.236430.237950.233960.235080.23396
process[recruit_W].ycs_values{1998}0.200410.200410.202920.210780.211160.21078
process[recruit_W].ycs_values{1999}0.060000.060000.060000.060390.060360.06039
process[recruit_W].ycs_values{2000}0.370890.370890.373040.379120.380230.37912
process[recruit_W].ycs_values{2001}0.095060.095060.095480.096640.096710.09664
process[recruit_W].ycs_values{2002}0.795530.795530.795580.799150.801160.79915
process[recruit_W].ycs_values{2003}0.465700.465700.465170.470280.470770.47028
process[recruit_W].ycs_values{2004}0.517610.517610.516620.521460.522380.52146
process[recruit_W].ycs_values{2005}0.513050.513060.511260.515590.516220.51559
process[recruit_W].ycs_values{2006}0.754750.754750.755440.748410.749060.74841
process[recruit_W].ycs_values{2007}0.636920.636920.638910.616330.616950.61633
process[recruit_W].ycs_values{2008}0.615640.615640.616860.605630.606270.60563
process[recruit_W].ycs_values{2009}0.573050.573050.578410.556140.557280.55614
process[recruit_W].ycs_values{2010}0.146180.146180.145470.141090.141360.14109
process[recruit_W].ycs_values{2011}0.967080.967080.974780.940500.940180.94050
process[recruit_W].ycs_values{2012}0.159090.159090.160160.155320.155120.15532
process[recruit_W].ycs_values{2013}0.244020.244020.244440.221750.221880.22175
process[recruit_W].ycs_values{2014}2.186512.186512.196572.084362.081382.08436
process[recruit_W].ycs_values{2015}2.147582.147582.152042.130772.132062.13077
process[recruit_W].ycs_values{2016}1.189091.189091.195391.318431.319461.31843
selectivity[sel_Whome].v{1}            0.321930.321930.327830.249720.248170.24972
selectivity[sel_Whome].v{2}            0.284910.284910.307780.170880.168090.17088
selectivity[sel_Whome].v{3}            0.459720.459720.476200.564070.559640.56407
selectivity[sel_Whome].v{4}            0.135490.135490.141840.319920.311220.31992
selectivity[sel_Whome].v{5}            0.437820.437820.468360.535610.548510.53561
selectivity[sel_Whome].v{6}            0.708210.708240.750260.988010.835500.98801
selectivity[sel_Whome].v{7}            0.999910.999890.788411.000001.000001.00000
selectivity[sel_Espmg].v{1}            0.005640.005640.005660.004630.004610.00463
selectivity[sel_Espmg].v{2}            0.159120.159120.160210.138970.138540.13897
selectivity[sel_Espmg].v{3}            0.320820.320820.324110.294780.294000.29478
selectivity[sel_Espmg].v{4}            0.425470.425470.431230.409030.408150.40903
selectivity[sel_Espmg].v{5}            0.379530.379530.385460.378650.378030.37865
selectivity[sel_Espmg].v{6}            0.458760.458760.465350.468380.467810.46838
selectivity[sel_Espmg].v{7}            0.590810.590810.599020.612340.611970.61234
selectivity[sel_Espmg].v{8}            0.611000.611000.607780.610830.610970.61083
selectivity[sel_Wspmg].v{1}            0.105560.105560.106140.121340.121160.12134
selectivity[sel_Wspmg].v{2}            0.291360.291360.287740.374660.375610.37466
selectivity[sel_Wspmg].v{3}            0.270680.270680.270760.270860.270760.27086
selectivity[sel_Wspmg].v{4}            0.455270.455270.455250.443700.444100.44370
selectivity[sel_Wspmg].v{5}            0.484210.484210.484660.482040.480910.48204
selectivity[sel_Wspmg].v{6}            0.524960.524960.527110.529450.532730.52945
selectivity[sel_Wspmg].v{7}            0.652980.652980.660620.674930.673670.67493
selectivity[sel_Wspmg].v{8}            0.601530.601530.596270.596400.595900.59640
selectivity[Enspsl].mu              3.573183.573183.567163.755913.753603.75591
selectivity[Enspsl].sigma_l         1.222451.222451.221081.330441.329571.33044
selectivity[Enspsl].sigma_r         49.9999050.0000015.7137011.2472011.4273011.24720
selectivity[Wnspsl].mu              5.328405.328405.3411714.5084014.5159014.50840
selectivity[Wnspsl].sigma_l         2.778152.778152.8393449.0067048.9616049.00670
selectivity[Wnspsl].sigma_r         49.9998049.9999013.378901.004341.004001.00434
selectivity[Espsl].mu              11.2567011.2567010.8788010.6168010.6263010.61680
selectivity[Espsl].sigma_l         10.8674010.8673011.6775049.9247049.9302049.92470
selectivity[Espsl].sigma_r         4.026254.026253.981653.783153.788163.78315
selectivity[CRsl].mu              1.000001.000001.000001.002261.002091.00226
selectivity[CRsl].sigma_l         46.5219046.5220046.0231049.9863049.9874049.98630
selectivity[CRsl].sigma_r         10.0928010.092809.300428.550798.572008.55079
selectivity[SAsl].mu              14.8685014.8685014.2523014.5003014.5113014.50030
selectivity[SAsl].sigma_l         8.694688.694678.7555811.7095011.7175011.70950
selectivity[SAsl].sigma_r         1.000001.000001.315191.015241.014121.01524
Casal2 parameter estimates: Percent Difference from betadiff_casal_flags_on
rownamesbetadiff_casal_flags_onbetadiff_casal_flags_offbetadiff_casal_flags_on_low_toladolc_casal_flags_onadolc_casal_flags_offadolc_casal_flags_on_low_tol
catchability[CSacous].q               0.0000.000-0.918-2.096-2.422-2.096
catchability[WCacous].q               0.0000.0004.02810.70610.93010.706
catchability[CRsum].q               0.0000.000-8.765-15.367-14.322-15.367
catchability[SAsum].q               0.000-0.00011.79730.30130.44530.301
catchability[SAaut].q               0.0000.00011.36333.10533.28233.105
observation[CRsumbio].process_error   0.000-0.0010.328-6.342-6.439-6.342
observation[SAsumbio].process_error   0.0000.000-1.6453.8843.7673.884
process[recruit_E].b0              0.000-0.000-1.227-2.843-2.404-2.843
process[recruit_W].b0              0.0000.000-4.712-12.784-12.821-12.784
process[Instant_mortality].m{west.sa}             0.0000.0005.34913.46813.16613.468
time_varying[shifted_mu].a               0.0000.0005.13525.17225.02025.172
process[recruit_E].ycs_values{1975}0.0000.000-0.5490.8310.4930.831
process[recruit_E].ycs_values{1976}0.0000.0000.3553.2422.9783.242
process[recruit_E].ycs_values{1977}0.0000.0000.9814.2244.0194.224
process[recruit_E].ycs_values{1978}0.0000.0001.9066.0165.8606.016
process[recruit_E].ycs_values{1979}0.0000.0001.4855.1504.8335.150
process[recruit_E].ycs_values{1980}0.0000.0001.5124.3654.5064.365
process[recruit_E].ycs_values{1981}0.0000.0001.7125.1285.0405.128
process[recruit_E].ycs_values{1982}0.000-0.0001.5504.5104.4974.510
process[recruit_E].ycs_values{1983}0.000-0.0011.5594.5354.4174.535
process[recruit_E].ycs_values{1984}0.000-0.0001.2293.6383.6613.638
process[recruit_E].ycs_values{1985}0.0000.0001.1013.2733.2973.273
process[recruit_E].ycs_values{1986}0.0000.0000.8502.7442.5302.744
process[recruit_E].ycs_values{1987}0.0000.0000.4722.3272.4972.327
process[recruit_E].ycs_values{1988}0.000-0.0000.4713.4623.5493.462
process[recruit_E].ycs_values{1989}0.0000.0000.4551.0641.0181.064
process[recruit_E].ycs_values{1990}0.000-0.001-0.101-0.951-0.920-0.951
process[recruit_E].ycs_values{1991}0.0000.000-0.3070.7751.1340.775
process[recruit_E].ycs_values{1992}0.0000.000-0.7870.0860.4880.086
process[recruit_E].ycs_values{1993}0.0000.000-0.831-2.547-2.413-2.547
process[recruit_E].ycs_values{1994}0.0000.000-0.8801.0261.3571.026
process[recruit_E].ycs_values{1995}0.0000.000-0.843-1.713-1.606-1.713
process[recruit_E].ycs_values{1996}0.0000.000-0.695-2.328-2.213-2.328
process[recruit_E].ycs_values{1997}0.0000.000-0.496-0.743-0.582-0.743
process[recruit_E].ycs_values{1998}0.0000.000-0.1700.4430.6250.443
process[recruit_E].ycs_values{1999}0.0000.0000.000-0.795-0.733-0.795
process[recruit_E].ycs_values{2000}0.0000.000-0.449-1.002-0.812-1.002
process[recruit_E].ycs_values{2001}0.0000.001-0.489-2.561-2.433-2.561
process[recruit_E].ycs_values{2002}0.0000.000-0.2940.2240.7610.224
process[recruit_E].ycs_values{2003}0.0000.000-0.159-1.278-1.181-1.278
process[recruit_E].ycs_values{2004}0.0000.0000.096-0.893-0.733-0.893
process[recruit_E].ycs_values{2005}0.0000.000-0.233-1.799-1.700-1.799
process[recruit_E].ycs_values{2006}0.000-0.000-0.070-1.295-1.198-1.295
process[recruit_E].ycs_values{2007}0.0000.000-0.244-3.669-3.627-3.669
process[recruit_E].ycs_values{2008}0.0000.000-0.500-1.300-0.895-1.300
process[recruit_E].ycs_values{2009}0.0000.0000.206-3.869-3.832-3.869
process[recruit_E].ycs_values{2010}0.0000.000-1.074-5.258-5.228-5.258
process[recruit_E].ycs_values{2011}0.0000.000-0.017-3.272-3.186-3.272
process[recruit_E].ycs_values{2012}0.0000.000-0.294-3.981-4.139-3.981
process[recruit_E].ycs_values{2013}0.0000.000-0.355-4.388-4.180-4.388
process[recruit_E].ycs_values{2014}0.0000.000-0.299-5.737-5.728-5.737
process[recruit_E].ycs_values{2015}0.000-0.0002.2319.51110.1379.511
process[recruit_E].ycs_values{2016}0.0000.000-0.529-10.880-10.964-10.880
process[recruit_W].ycs_values{1975}0.0000.0010.365-3.670-3.342-3.670
process[recruit_W].ycs_values{1976}0.0000.000-0.977-3.277-3.585-3.277
process[recruit_W].ycs_values{1977}0.000-0.0012.2102.6262.6672.626
process[recruit_W].ycs_values{1978}0.0000.0012.3112.7492.9622.749
process[recruit_W].ycs_values{1979}0.0000.0001.5171.3861.0671.386
process[recruit_W].ycs_values{1980}0.0000.0001.061-0.1160.104-0.116
process[recruit_W].ycs_values{1981}0.000-0.0000.892-0.825-0.766-0.825
process[recruit_W].ycs_values{1982}0.000-0.0000.284-1.762-1.744-1.762
process[recruit_W].ycs_values{1983}0.0000.0000.133-2.898-2.814-2.898
process[recruit_W].ycs_values{1984}0.000-0.000-0.016-3.892-3.842-3.892
process[recruit_W].ycs_values{1985}0.0000.000-0.257-3.715-3.996-3.715
process[recruit_W].ycs_values{1986}0.0000.000-0.021-2.291-2.483-2.291
process[recruit_W].ycs_values{1987}0.0000.0000.305-5.129-5.071-5.129
process[recruit_W].ycs_values{1988}0.0000.0000.229-4.436-4.661-4.436
process[recruit_W].ycs_values{1989}0.0000.0000.1600.0090.1020.009
process[recruit_W].ycs_values{1990}0.000-0.0000.3041.7690.3771.769
process[recruit_W].ycs_values{1991}0.0000.000-0.0934.6254.3884.625
process[recruit_W].ycs_values{1992}0.000-0.001-0.0171.2601.3281.260
process[recruit_W].ycs_values{1993}0.0000.001-0.1850.2770.3560.277
process[recruit_W].ycs_values{1994}0.0000.000-0.377-3.999-3.928-3.999
process[recruit_W].ycs_values{1995}0.0000.000-0.392-0.712-0.583-0.712
process[recruit_W].ycs_values{1996}0.0000.000-0.4404.7754.7804.775
process[recruit_W].ycs_values{1997}0.0000.000-0.6441.0430.5721.043
process[recruit_W].ycs_values{1998}0.0000.000-1.251-5.177-5.366-5.177
process[recruit_W].ycs_values{1999}0.0000.0000.000-0.653-0.602-0.653
process[recruit_W].ycs_values{2000}0.0000.000-0.580-2.220-2.518-2.220
process[recruit_W].ycs_values{2001}0.000-0.000-0.446-1.666-1.736-1.666
process[recruit_W].ycs_values{2002}0.0000.000-0.007-0.455-0.708-0.455
process[recruit_W].ycs_values{2003}0.000-0.0000.114-0.983-1.088-0.983
process[recruit_W].ycs_values{2004}0.0000.0000.191-0.744-0.922-0.744
process[recruit_W].ycs_values{2005}0.000-0.0000.350-0.494-0.617-0.494
process[recruit_W].ycs_values{2006}0.0000.000-0.0910.8400.7540.840
process[recruit_W].ycs_values{2007}0.000-0.000-0.3123.2323.1353.232
process[recruit_W].ycs_values{2008}0.0000.000-0.1981.6261.5221.626
process[recruit_W].ycs_values{2009}0.0000.000-0.9342.9522.7522.952
process[recruit_W].ycs_values{2010}0.0000.0000.4833.4793.2933.479
process[recruit_W].ycs_values{2011}0.000-0.000-0.7962.7492.7822.749
process[recruit_W].ycs_values{2012}0.0000.000-0.6742.3682.4952.368
process[recruit_W].ycs_values{2013}0.0000.000-0.1729.1269.0729.126
process[recruit_W].ycs_values{2014}0.0000.000-0.4604.6724.8084.672
process[recruit_W].ycs_values{2015}0.0000.000-0.2080.7830.7230.783
process[recruit_W].ycs_values{2016}0.0000.000-0.530-10.877-10.964-10.877
selectivity[sel_Whome].v{1}            0.0000.000-1.83322.43022.91222.430
selectivity[sel_Whome].v{2}            0.0000.000-8.02740.02541.00240.025
selectivity[sel_Whome].v{3}            0.0000.000-3.584-22.698-21.734-22.698
selectivity[sel_Whome].v{4}            0.000-0.002-4.687-136.120-129.699-136.120
selectivity[sel_Whome].v{5}            0.0000.002-6.975-22.336-25.282-22.336
selectivity[sel_Whome].v{6}            0.000-0.003-5.937-39.507-17.973-39.507
selectivity[sel_Whome].v{7}            0.0000.00121.152-0.009-0.009-0.009
selectivity[sel_Espmg].v{1}            0.000-0.000-0.33117.94418.27617.944
selectivity[sel_Espmg].v{2}            0.000-0.001-0.68312.66612.93512.666
selectivity[sel_Espmg].v{3}            0.000-0.001-1.0288.1158.3588.115
selectivity[sel_Espmg].v{4}            0.000-0.000-1.3543.8634.0693.863
selectivity[sel_Espmg].v{5}            0.000-0.000-1.5630.2310.3940.231
selectivity[sel_Espmg].v{6}            0.000-0.000-1.436-2.097-1.972-2.097
selectivity[sel_Espmg].v{7}            0.000-0.000-1.389-3.644-3.581-3.644
selectivity[sel_Espmg].v{8}            0.0000.0000.5280.0280.0060.028
selectivity[sel_Wspmg].v{1}            0.0000.000-0.552-14.946-14.779-14.946
selectivity[sel_Wspmg].v{2}            0.000-0.0001.242-28.591-28.916-28.591
selectivity[sel_Wspmg].v{3}            0.000-0.000-0.029-0.066-0.027-0.066
selectivity[sel_Wspmg].v{4}            0.0000.0000.0042.5412.4542.541
selectivity[sel_Wspmg].v{5}            0.0000.000-0.0920.4480.6820.448
selectivity[sel_Wspmg].v{6}            0.0000.000-0.409-0.856-1.480-0.856
selectivity[sel_Wspmg].v{7}            0.0000.000-1.171-3.362-3.169-3.362
selectivity[sel_Wspmg].v{8}            0.0000.0000.8750.8530.9370.853
selectivity[Enspsl].mu              0.0000.0000.168-5.114-5.049-5.114
selectivity[Enspsl].sigma_l         0.0000.0000.112-8.834-8.763-8.834
selectivity[Enspsl].sigma_r         0.000-0.00068.57377.50677.14577.506
selectivity[Wnspsl].mu              0.0000.000-0.240-172.284-172.425-172.284
selectivity[Wnspsl].sigma_l         0.0000.000-2.203-1664.005-1662.381-1664.005
selectivity[Wnspsl].sigma_r         0.000-0.00073.24297.99197.99297.991
selectivity[Espsl].mu              0.0000.0003.3575.6855.6005.685
selectivity[Espsl].sigma_l         0.0000.001-7.454-359.399-359.449-359.399
selectivity[Espsl].sigma_r         0.0000.0001.1086.0385.9136.038
selectivity[CRsl].mu              0.0000.0000.000-0.226-0.209-0.226
selectivity[CRsl].sigma_l         0.000-0.0001.072-7.447-7.449-7.447
selectivity[CRsl].sigma_r         0.0000.0007.85115.27815.06815.278
selectivity[SAsl].mu              0.0000.0004.1442.4762.4022.476
selectivity[SAsl].sigma_l         0.0000.000-0.700-34.674-34.766-34.674
selectivity[SAsl].sigma_r         0.0000.000-31.519-1.524-1.412-1.524

CASAL objective function component values
ComponentBase_ModelSensitivity_1
CRsumbio-31.030-31.030
CSacous-9.835-9.836
SAautbio-3.984-3.984
SAsumbio-6.146-6.146
WCacous-5.916-5.916
CRsumage323.800323.800
SAautage35.12035.120
SAsumage221.100221.100
EnspOLF24.28024.280
Enspage256.100256.100
Espage581.500581.500
WnspOLF70.25070.250
Wnspage157.000157.000
Wspage364.800364.800
pspawn-13.130-13.130
pspawn_1993-6.015-6.015
prior_on_q[CSacous].q-0.839-0.839
prior_on_q[WCacous].q-1.202-1.202
prior_on_q[CRsum].q-2.207-2.207
prior_on_q[SAsum].q-1.557-1.557
prior_on_q[SAaut].q-1.762-1.762
prior_on_relative_abundance[CRsumbio].cv_process_error0.0000.000
prior_on_relative_abundance[SAsumbio].cv_process_error0.0000.000
prior_on_log_B0_total0.0000.000
prior_on_B0_prop_stock112.56012.560
prior_on_natural_mortality.all-1.217-1.217
prior_on_selectivity[Wspsl].shift_a0.3780.378
prior_on_recruitment[E].YCS-13.750-13.750
prior_on_recruitment[W].YCS-1.785-1.785
prior_on_migration[Whome].rates_all0.0000.000
prior_on_migration[Espmg].rates_all0.0000.000
prior_on_migration[Wspmg].rates_all0.0000.000
prior_on_selectivity[Enspsl].all0.0000.000
prior_on_selectivity[Wnspsl].all0.0000.000
prior_on_selectivity[Espsl].all0.0000.000
prior_on_selectivity[CRsl].all0.0000.000
prior_on_selectivity[SAsl].all0.0000.000
Umax_Ensp10.0000.000
Umax_Ensp20.0000.000
Umax_Wnsp10.0000.000
Umax_Wnsp20.0000.000
Umax_Esp0.0000.000
Umax_Wsp0.0000.000
YCS.eq.160.0000.000
sp.migr0.0130.013
Total1947.0001947.000
Casal2 objective function component values
rownamesbetadiff_casal_flags_onbetadiff_casal_flags_offbetadiff_casal_flags_on_low_toladolc_casal_flags_onadolc_casal_flags_offadolc_casal_flags_on_low_tol
observation->CSacous-1991                 2.3422.3422.4042.3672.3672.367
observation->CSacous-1993                 -0.577-0.577-0.588-0.590-0.590-0.590
observation->CSacous-1994                 -0.016-0.016-0.030-0.045-0.044-0.045
observation->CSacous-1995                 -0.562-0.562-0.567-0.572-0.572-0.572
observation->CSacous-1996                 -0.027-0.0260.0130.0640.0620.064
observation->CSacous-1997                 -0.912-0.912-0.899-0.883-0.885-0.883
observation->CSacous-1998                 -0.054-0.054-0.0040.0440.0390.044
observation->CSacous-1999                 -1.025-1.025-1.012-0.996-0.998-0.996
observation->CSacous-2001                 -1.217-1.217-1.211-1.205-1.206-1.205
observation->CSacous-2002                 -0.297-0.297-0.338-0.399-0.397-0.399
observation->CSacous-2003                 -0.845-0.845-0.863-0.893-0.891-0.893
observation->CSacous-2005                 -0.929-0.929-0.927-0.916-0.918-0.916
observation->CSacous-2006                 -0.939-0.939-0.950-0.968-0.970-0.968
observation->CSacous-2007                 -0.623-0.623-0.600-0.547-0.546-0.547
observation->CSacous-2008                 -1.094-1.094-1.125-1.176-1.176-1.176
observation->CSacous-2009                 -0.185-0.185-0.1100.0530.0510.053
observation->CSacous-2011                 -1.021-1.021-1.000-0.964-0.965-0.964
observation->CSacous-2013                 -0.892-0.892-0.855-0.842-0.844-0.842
observation->CSacous-2015                 -0.190-0.190-0.150-0.195-0.199-0.195
observation->CSacous-2017                 -1.020-1.020-1.021-0.987-0.986-0.987
observation->WCacous-1988                 -0.588-0.588-0.588-0.589-0.589-0.589
observation->WCacous-1989                 -0.183-0.183-0.168-0.068-0.076-0.068
observation->WCacous-1990                 -0.332-0.332-0.327-0.260-0.267-0.260
observation->WCacous-1991                 -0.425-0.425-0.425-0.425-0.425-0.425
observation->WCacous-1992                 -0.744-0.744-0.744-0.728-0.728-0.728
observation->WCacous-1993                 -0.369-0.369-0.374-0.488-0.488-0.488
observation->WCacous-1997                 -0.054-0.054-0.043-0.011-0.011-0.011
observation->WCacous-2000                 -1.265-1.265-1.272-1.278-1.278-1.278
observation->WCacous-2012                 -0.906-0.906-0.896-0.800-0.802-0.800
observation->WCacous-2013                 -1.079-1.079-1.079-1.068-1.068-1.068
observation->CRsumbio-1992                 -1.634-1.634-1.647-1.533-1.531-1.533
observation->CRsumbio-1993                 0.0400.0400.0430.3940.3920.394
observation->CRsumbio-1994                 -1.760-1.760-1.760-1.723-1.722-1.723
observation->CRsumbio-1995                 -1.425-1.425-1.406-1.345-1.341-1.345
observation->CRsumbio-1996                 -1.690-1.690-1.699-1.706-1.705-1.706
observation->CRsumbio-1997                 -0.607-0.607-0.635-0.827-0.820-0.827
observation->CRsumbio-1998                 -1.203-1.203-1.210-1.054-1.060-1.054
observation->CRsumbio-1999                 -0.953-0.953-0.919-0.816-0.820-0.816
observation->CRsumbio-2000                 -1.629-1.629-1.632-1.636-1.633-1.636
observation->CRsumbio-2001                 -1.773-1.773-1.775-1.729-1.728-1.729
observation->CRsumbio-2002                 -1.209-1.209-1.206-1.089-1.097-1.089
observation->CRsumbio-2003                 -1.749-1.749-1.744-1.722-1.724-1.722
observation->CRsumbio-2004                 -0.818-0.818-0.803-0.849-0.854-0.849
observation->CRsumbio-2005                 -1.471-1.471-1.477-1.459-1.457-1.459
observation->CRsumbio-2006                 -1.314-1.314-1.306-1.450-1.451-1.450
observation->CRsumbio-2007                 -0.727-0.727-0.756-0.640-0.645-0.640
observation->CRsumbio-2008                 -0.373-0.373-0.402-0.445-0.439-0.445
observation->CRsumbio-2009                 -0.586-0.586-0.559-0.619-0.615-0.619
observation->CRsumbio-2010                 -1.349-1.349-1.359-1.318-1.314-1.318
observation->CRsumbio-2011                 -1.096-1.096-1.105-1.095-1.094-1.095
observation->CRsumbio-2012                 -1.439-1.439-1.448-1.371-1.367-1.371
observation->CRsumbio-2013                 -1.494-1.494-1.491-1.433-1.433-1.433
observation->CRsumbio-2014                 -1.768-1.768-1.770-1.724-1.723-1.724
observation->CRsumbio-2016                 -1.410-1.410-1.411-1.281-1.281-1.281
observation->CRsumbio-2018                 -1.552-1.552-1.554-1.485-1.485-1.485
observation->SAsumbio-1992                 -0.597-0.597-0.588-0.696-0.692-0.696
observation->SAsumbio-1993                 -0.314-0.314-0.309-0.479-0.477-0.479
observation->SAsumbio-1994                 0.1960.1960.1860.0320.0270.032
observation->SAsumbio-2001                 -0.835-0.835-0.822-0.866-0.866-0.866
observation->SAsumbio-2002                 -0.794-0.794-0.777-0.822-0.822-0.822
observation->SAsumbio-2003                 -0.837-0.837-0.825-0.868-0.867-0.868
observation->SAsumbio-2004                 0.7320.7320.7340.7480.7500.748
observation->SAsumbio-2005                 -0.258-0.258-0.218-0.229-0.226-0.229
observation->SAsumbio-2006                 -0.600-0.600-0.558-0.616-0.615-0.616
observation->SAsumbio-2007                 0.6360.6360.6540.8060.8120.806
observation->SAsumbio-2008                 -0.461-0.461-0.462-0.520-0.520-0.520
observation->SAsumbio-2009                 -0.585-0.585-0.583-0.636-0.639-0.636
observation->SAsumbio-2010                 -0.143-0.143-0.147-0.156-0.155-0.156
observation->SAsumbio-2012                 -0.848-0.848-0.835-0.880-0.879-0.880
observation->SAsumbio-2013                 -0.797-0.797-0.786-0.821-0.820-0.821
observation->SAsumbio-2015                 -0.200-0.200-0.189-0.279-0.279-0.279
observation->SAsumbio-2017                 -0.638-0.638-0.620-0.701-0.701-0.701
observation->SAautbio-1992                 -1.459-1.459-1.450-1.353-1.355-1.353
observation->SAautbio-1996                 -1.233-1.232-1.250-1.256-1.259-1.256
observation->SAautbio-1998                 -1.308-1.308-1.284-1.283-1.285-1.283
observation->Espage-1988                 19.79319.79319.64019.50319.50519.503
observation->Espage-1989                 15.85815.85815.86215.86815.86415.868
observation->Espage-1990                 21.48821.48821.44621.39421.38521.394
observation->Espage-1991                 20.64120.64120.61220.52820.52320.528
observation->Espage-1992                 24.08924.08924.02023.90023.91623.900
observation->Espage-1993                 19.30519.30519.32819.45119.45019.451
observation->Espage-1994                 20.52820.52820.50320.46120.45220.461
observation->Espage-1995                 22.54122.54122.55922.53822.52622.538
observation->Espage-1996                 18.59018.59018.57718.57318.57418.573
observation->Espage-1997                 20.97420.97420.96420.86920.87520.869
observation->Espage-1998                 20.58720.58720.61120.54620.53320.546
observation->Espage-1999                 22.88622.88622.86222.68922.67222.689
observation->Espage-2000                 23.32123.32123.31423.42223.42223.422
observation->Espage-2001                 20.73520.73520.77320.80420.79920.804
observation->Espage-2002                 26.24826.24826.28726.19926.18626.199
observation->Espage-2003                 19.12019.12019.12019.08219.07819.082
observation->Espage-2004                 22.69222.69222.64222.57522.58422.575
observation->Espage-2005                 26.12226.12226.07025.96625.95725.966
observation->Espage-2006                 23.24223.24223.14923.08823.09623.088
observation->Espage-2007                 25.27425.27425.21025.15025.16125.150
observation->Espage-2008                 22.16722.16822.12922.09122.08822.091
observation->Espage-2009                 18.69118.69118.69018.67618.67318.676
observation->Espage-2010                 21.85521.85521.85121.78521.78521.785
observation->Espage-2014                 20.61620.61620.64820.61020.60720.610
observation->Espage-2015                 21.82321.82321.87021.91621.90721.916
observation->Espage-2016                 21.20421.20421.20421.20921.20821.209
observation->Espage-2017                 21.57521.57521.56321.58521.58521.585
observation->Wspage-1988                 15.72415.72415.75316.22716.22916.227
observation->Wspage-1989                 11.55511.55511.56611.71611.71711.716
observation->Wspage-1990                 11.75211.75111.79012.11512.12312.115
observation->Wspage-1991                 13.03613.03613.05113.25413.25713.254
observation->Wspage-1992                 10.17810.17810.17010.16110.16410.161
observation->Wspage-1993                 10.56910.56910.57910.49710.50010.497
observation->Wspage-1994                 9.9189.9189.9249.8409.8459.840
observation->Wspage-1995                 13.40313.40313.39613.42413.42413.424
observation->Wspage-1996                 11.84011.84011.84411.92911.93311.929
observation->Wspage-1997                 11.23011.23011.24311.37011.37711.370
observation->Wspage-1998                 11.76111.76111.76211.78711.78811.787
observation->Wspage-1999                 11.97511.97511.98112.14112.13912.141
observation->Wspage-2000                 11.25611.25611.26011.37411.37911.374
observation->Wspage-2001                 12.17912.17912.20112.27512.28112.275
observation->Wspage-2002                 9.7319.7319.7459.7989.8009.798
observation->Wspage-2003                 9.5559.5559.5569.5859.5889.585
observation->Wspage-2004                 14.34014.34014.30414.28314.28414.283
observation->Wspage-2005                 14.93214.93214.97715.12915.12615.129
observation->Wspage-2006                 13.81713.81713.87214.09314.10214.093
observation->Wspage-2007                 11.49811.49811.51611.52711.53011.527
observation->Wspage-2008                 12.19512.19512.19411.98011.98911.980
observation->Wspage-2009                 12.63112.63112.59412.21212.21112.212
observation->Wspage-2010                 11.31611.31611.29911.20711.21011.207
observation->Wspage-2011                 11.15411.15411.13711.08811.09111.088
observation->Wspage-2012                 11.86711.86711.86011.84611.84611.846
observation->Wspage-2013                 11.04111.04111.06511.07111.07111.071
observation->Wspage-2014                 12.94412.94412.94112.93412.93612.934
observation->Wspage-2015                 13.13413.13413.10113.00913.01213.009
observation->Wspage-2016                 14.27214.27214.27314.33914.33214.339
observation->Wspage-2017                 13.74513.74513.79714.07014.06514.070
observation->EnspOLF-1992                 4.3974.3974.3884.2964.2964.296
observation->EnspOLF-1994                 6.6476.6476.6786.6586.6456.658
observation->EnspOLF-1996                 7.8977.8977.9067.7487.7467.748
observation->EnspOLF-1998                 5.3015.3015.3035.2075.2055.207
observation->Enspage-1999                 14.33214.33214.28714.44914.45414.449
observation->Enspage-2000                 13.97513.97513.96014.04614.04914.046
observation->Enspage-2001                 13.97913.97913.92913.84613.86613.846
observation->Enspage-2002                 12.08112.08112.07811.98512.00111.985
observation->Enspage-2003                 9.7009.7009.7069.7209.7229.720
observation->Enspage-2004                 12.96612.96612.98612.79212.79112.792
observation->Enspage-2005                 11.01211.01211.00910.97610.96310.976
observation->Enspage-2006                 12.74112.74112.71212.86812.89012.868
observation->Enspage-2007                 11.06111.06111.05211.12011.10811.120
observation->Enspage-2008                 12.10412.10412.10112.19312.19012.193
observation->Enspage-2009                 10.05610.05610.05510.05210.05110.052
observation->Enspage-2010                 17.58117.58117.62717.58717.53917.587
observation->Enspage-2011                 13.39913.39913.41213.31513.31313.315
observation->Enspage-2012                 13.14913.14913.13413.00813.01313.008
observation->Enspage-2013                 16.69416.69416.65916.73816.73616.738
observation->Enspage-2014                 13.86913.86913.87013.91013.91413.910
observation->Enspage-2015                 12.76012.76012.77612.78612.79212.786
observation->Enspage-2016                 19.22419.22419.20319.29219.30219.292
observation->Enspage-2017                 15.56215.56215.51115.61415.60015.614
observation->WnspOLF-1992                 10.12210.12210.12911.33111.33811.331
observation->WnspOLF-1993                 9.0459.0458.9919.9509.9639.950
observation->WnspOLF-1994                 15.93015.93015.89319.12419.09219.124
observation->WnspOLF-1996                 9.7889.7889.7528.9348.9348.934
observation->WnspOLF-1999                 11.55311.55311.59310.85410.86310.854
observation->WnspOLF-2000                 13.81213.81213.89214.05314.07514.053
observation->Wnspage-2001                 8.0328.0327.9948.3418.3448.341
observation->Wnspage-2002                 8.7158.7158.7018.6028.6008.602
observation->Wnspage-2003                 10.47310.47310.50710.60810.61010.608
observation->Wnspage-2004                 7.1557.1557.1407.0637.0647.063
observation->Wnspage-2006                 9.5899.5899.5519.9999.9949.999
observation->Wnspage-2007                 10.86110.86110.82211.40411.39911.404
observation->Wnspage-2008                 12.42512.42512.43512.94112.94312.941
observation->Wnspage-2009                 14.71614.71614.79014.16014.16014.160
observation->Wnspage-2010                 11.40511.40511.37011.46611.46611.466
observation->Wnspage-2011                 11.26711.26711.27511.09211.09611.092
observation->Wnspage-2012                 10.45410.45410.46510.77510.77910.775
observation->Wnspage-2013                 13.63313.63313.63413.68513.68713.685
observation->Wnspage-2014                 12.60812.60812.59711.23811.24111.238
observation->Wnspage-2016                 15.68715.68715.72214.89814.88714.898
observation->CRsumage-1992                 15.58415.58415.56614.75014.73614.750
observation->CRsumage-1993                 10.61610.61610.62410.55610.55410.556
observation->CRsumage-1994                 18.17018.17018.13017.55517.55617.555
observation->CRsumage-1995                 14.28514.28514.24213.67513.64813.675
observation->CRsumage-1996                 11.56711.56711.60711.09711.09011.097
observation->CRsumage-1997                 15.75415.75415.68815.42015.41115.420
observation->CRsumage-1998                 14.69014.69014.69013.35513.34813.355
observation->CRsumage-1999                 12.06112.06112.08412.39612.38412.396
observation->CRsumage-2000                 14.32314.32314.28314.70814.72914.708
observation->CRsumage-2001                 19.65919.65919.52018.90618.91518.906
observation->CRsumage-2002                 10.96910.96910.96011.01111.02211.011
observation->CRsumage-2003                 11.25111.25111.21011.16211.16411.162
observation->CRsumage-2004                 9.5539.5539.5619.0949.0979.094
observation->CRsumage-2005                 12.75312.75312.65412.42112.40612.421
observation->CRsumage-2006                 10.31610.31610.31711.10111.11311.101
observation->CRsumage-2007                 13.56213.56213.50413.09013.09613.090
observation->CRsumage-2008                 11.66111.66111.63911.75111.75111.751
observation->CRsumage-2009                 12.00612.00611.96512.00812.01712.008
observation->CRsumage-2010                 11.04811.04811.05511.70811.69011.708
observation->CRsumage-2011                 12.57912.57912.57113.70113.71113.701
observation->CRsumage-2012                 17.22817.22817.14116.24816.25916.248
observation->CRsumage-2013                 11.84311.84311.82212.77512.78412.775
observation->CRsumage-2014                 11.28611.28611.27111.42611.42411.426
observation->CRsumage-2016                 9.8669.8669.84710.39910.40510.399
observation->CRsumage-2018                 11.93111.93111.89512.57912.58212.579
observation->SAsumage-1992                 12.24612.24612.26912.11612.13012.116
observation->SAsumage-1993                 12.47012.47012.50212.75612.75812.756
observation->SAsumage-1994                 10.81110.81110.81810.92910.92910.929
observation->SAsumage-2001                 12.74912.74912.83912.99813.00212.998
observation->SAsumage-2002                 12.20912.20912.25412.44312.44312.443
observation->SAsumage-2003                 13.38613.38613.38613.62013.61513.620
observation->SAsumage-2004                 11.06711.06711.00511.09511.10411.095
observation->SAsumage-2005                 15.27815.27815.38615.77915.76515.779
observation->SAsumage-2006                 14.11214.11214.07814.24314.23614.243
observation->SAsumage-2007                 10.64910.64910.63910.76510.76810.765
observation->SAsumage-2008                 13.77113.77113.83613.93013.93313.930
observation->SAsumage-2009                 15.51315.51315.53015.75015.74015.750
observation->SAsumage-2010                 15.08115.08115.13015.58715.57315.587
observation->SAsumage-2012                 13.43713.43713.47913.41413.41213.414
observation->SAsumage-2013                 11.95411.95411.98212.02112.02512.021
observation->SAsumage-2015                 13.52213.52213.54014.05714.06714.057
observation->SAsumage-2017                 12.49212.49212.47812.57112.56912.571
observation->SAautage-1992                 11.80911.80911.85712.22412.22212.224
observation->SAautage-1996                 10.44910.44910.42610.55810.56910.558
observation->SAautage-1998                 12.80912.80912.83512.90412.90112.904
observation->pspawn_1993                 -6.017-6.017-6.015-5.880-5.878-5.880
observation->pspawn-1992                 -4.848-4.848-4.829-4.799-4.802-4.799
observation->pspawn-1998                 -8.284-8.284-8.300-8.240-8.225-8.240
prior->CSacousq->catchability[CSacous].q               -0.849-0.849-0.839-0.826-0.823-0.826
prior->WCacousq->catchability[WCacous].q               -1.162-1.162-1.202-1.264-1.266-1.264
prior->CRsumq->catchability[CRsum].q               -2.155-2.155-2.207-2.231-2.228-2.231
prior->SAsumq->catchability[SAsum].q               -1.762-1.762-1.557-1.038-1.033-1.038
prior->SAautq->catchability[SAaut].q               -1.913-1.913-1.762-1.233-1.227-1.233
prior->CR_process_error->observation[CRsumbio].process_error   0.0000.0000.0000.0000.0000.000
prior->SA_process_error->observation[SAsumbio].process_error   0.0000.0000.0000.0000.0000.000
prior->B0_E_with_total_log_b0_prior->process[recruit_E].b0              0.0000.0000.0000.0000.0000.000
prior->B0_W_with_proportion_prior->process[recruit_W].b0              12.54412.54412.55512.59412.59812.594
prior->M_all->process[Instant_mortality].m{west.sa}             -1.085-1.085-1.217-1.151-1.160-1.151
prior->Wspsl_shift_param->time_varying[shifted_mu].a               0.4200.4200.3780.2350.2360.235
prior->YCS_E->process[recruit_E].ycs_values{1975}-0.624-0.624-0.623-0.626-0.625-0.626
prior->YCS_E->process[recruit_E].ycs_values{1976}-0.316-0.316-0.319-0.348-0.345-0.348
prior->YCS_E->process[recruit_E].ycs_values{1977}-0.227-0.227-0.238-0.274-0.272-0.274
prior->YCS_E->process[recruit_E].ycs_values{1978}0.6540.6540.6150.5320.5350.532
prior->YCS_E->process[recruit_E].ycs_values{1979}0.0840.0840.0620.0070.0120.007
prior->YCS_E->process[recruit_E].ycs_values{1980}-0.630-0.630-0.627-0.619-0.619-0.619
prior->YCS_E->process[recruit_E].ycs_values{1981}-0.619-0.619-0.623-0.631-0.631-0.631
prior->YCS_E->process[recruit_E].ycs_values{1982}-0.550-0.550-0.542-0.524-0.524-0.524
prior->YCS_E->process[recruit_E].ycs_values{1983}-0.627-0.627-0.630-0.635-0.635-0.635
prior->YCS_E->process[recruit_E].ycs_values{1984}-0.591-0.591-0.596-0.605-0.605-0.605
prior->YCS_E->process[recruit_E].ycs_values{1985}-0.641-0.641-0.642-0.643-0.643-0.643
prior->YCS_E->process[recruit_E].ycs_values{1986}-0.408-0.408-0.400-0.383-0.385-0.383
prior->YCS_E->process[recruit_E].ycs_values{1987}0.1420.1420.1350.1060.1030.106
prior->YCS_E->process[recruit_E].ycs_values{1988}0.0260.0260.019-0.024-0.025-0.024
prior->YCS_E->process[recruit_E].ycs_values{1989}-0.631-0.631-0.632-0.633-0.633-0.633
prior->YCS_E->process[recruit_E].ycs_values{1990}0.1590.1590.1580.1440.1450.144
prior->YCS_E->process[recruit_E].ycs_values{1991}-0.643-0.643-0.643-0.643-0.642-0.643
prior->YCS_E->process[recruit_E].ycs_values{1992}-0.643-0.643-0.643-0.643-0.643-0.643
prior->YCS_E->process[recruit_E].ycs_values{1993}-0.643-0.643-0.643-0.643-0.643-0.643
prior->YCS_E->process[recruit_E].ycs_values{1994}-0.530-0.530-0.525-0.536-0.538-0.536
prior->YCS_E->process[recruit_E].ycs_values{1995}-0.534-0.534-0.538-0.543-0.543-0.543
prior->YCS_E->process[recruit_E].ycs_values{1996}-0.574-0.574-0.577-0.584-0.583-0.584
prior->YCS_E->process[recruit_E].ycs_values{1997}-0.623-0.623-0.622-0.621-0.621-0.621
prior->YCS_E->process[recruit_E].ycs_values{1998}-0.512-0.512-0.513-0.509-0.508-0.509
prior->YCS_E->process[recruit_E].ycs_values{1999}2.0142.0142.0141.9911.9931.991
prior->YCS_E->process[recruit_E].ycs_values{2000}-0.616-0.616-0.614-0.613-0.613-0.613
prior->YCS_E->process[recruit_E].ycs_values{2001}-0.065-0.065-0.071-0.098-0.097-0.098
prior->YCS_E->process[recruit_E].ycs_values{2002}-0.543-0.543-0.545-0.542-0.539-0.542
prior->YCS_E->process[recruit_E].ycs_values{2003}-0.586-0.586-0.585-0.581-0.581-0.581
prior->YCS_E->process[recruit_E].ycs_values{2004}-0.568-0.568-0.568-0.563-0.564-0.563
prior->YCS_E->process[recruit_E].ycs_values{2005}-0.579-0.579-0.578-0.571-0.571-0.571
prior->YCS_E->process[recruit_E].ycs_values{2006}-0.483-0.483-0.482-0.474-0.474-0.474
prior->YCS_E->process[recruit_E].ycs_values{2007}-0.567-0.567-0.566-0.549-0.549-0.549
prior->YCS_E->process[recruit_E].ycs_values{2008}-0.643-0.643-0.643-0.643-0.643-0.643
prior->YCS_E->process[recruit_E].ycs_values{2009}-0.561-0.561-0.562-0.540-0.540-0.540
prior->YCS_E->process[recruit_E].ycs_values{2010}-0.031-0.031-0.046-0.100-0.100-0.100
prior->YCS_E->process[recruit_E].ycs_values{2011}-0.408-0.408-0.408-0.380-0.380-0.380
prior->YCS_E->process[recruit_E].ycs_values{2012}-0.019-0.019-0.023-0.072-0.074-0.072
prior->YCS_E->process[recruit_E].ycs_values{2013}-0.238-0.238-0.242-0.285-0.283-0.285
prior->YCS_E->process[recruit_E].ycs_values{2014}-0.317-0.317-0.314-0.258-0.258-0.258
prior->YCS_E->process[recruit_E].ycs_values{2015}-0.279-0.279-0.302-0.377-0.383-0.377
prior->YCS_E->process[recruit_E].ycs_values{2016}0.3630.3630.3730.5540.5560.554
prior->YCS_W->process[recruit_W].ycs_values{1975}-0.616-0.616-0.617-0.605-0.606-0.605
prior->YCS_W->process[recruit_W].ycs_values{1976}-0.195-0.195-0.184-0.156-0.153-0.156
prior->YCS_W->process[recruit_W].ycs_values{1977}-0.376-0.376-0.396-0.399-0.400-0.399
prior->YCS_W->process[recruit_W].ycs_values{1978}-0.396-0.396-0.417-0.420-0.422-0.420
prior->YCS_W->process[recruit_W].ycs_values{1979}-0.607-0.607-0.612-0.611-0.610-0.611
prior->YCS_W->process[recruit_W].ycs_values{1980}-0.567-0.567-0.573-0.567-0.568-0.567
prior->YCS_W->process[recruit_W].ycs_values{1981}-0.502-0.502-0.508-0.497-0.497-0.497
prior->YCS_W->process[recruit_W].ycs_values{1982}-0.606-0.606-0.607-0.600-0.600-0.600
prior->YCS_W->process[recruit_W].ycs_values{1983}-0.109-0.109-0.111-0.071-0.072-0.071
prior->YCS_W->process[recruit_W].ycs_values{1984}-0.163-0.163-0.163-0.115-0.116-0.115
prior->YCS_W->process[recruit_W].ycs_values{1985}-0.619-0.619-0.620-0.628-0.629-0.628
prior->YCS_W->process[recruit_W].ycs_values{1986}-0.098-0.098-0.098-0.127-0.129-0.127
prior->YCS_W->process[recruit_W].ycs_values{1987}0.7880.7880.7820.8960.8940.896
prior->YCS_W->process[recruit_W].ycs_values{1988}-0.252-0.252-0.255-0.203-0.200-0.203
prior->YCS_W->process[recruit_W].ycs_values{1989}1.2071.2071.2111.2071.2091.207
prior->YCS_W->process[recruit_W].ycs_values{1990}1.1971.1971.2041.2401.2061.240
prior->YCS_W->process[recruit_W].ycs_values{1991}-0.081-0.081-0.080-0.142-0.139-0.142
prior->YCS_W->process[recruit_W].ycs_values{1992}0.4800.4800.4800.4560.4550.456
prior->YCS_W->process[recruit_W].ycs_values{1993}-0.643-0.643-0.643-0.643-0.643-0.643
prior->YCS_W->process[recruit_W].ycs_values{1994}0.0140.0140.0200.0710.0700.071
prior->YCS_W->process[recruit_W].ycs_values{1995}-0.410-0.410-0.413-0.416-0.414-0.416
prior->YCS_W->process[recruit_W].ycs_values{1996}-0.301-0.301-0.306-0.249-0.249-0.249
prior->YCS_W->process[recruit_W].ycs_values{1997}-0.466-0.466-0.471-0.458-0.462-0.458
prior->YCS_W->process[recruit_W].ycs_values{1998}-0.322-0.322-0.334-0.371-0.372-0.371
prior->YCS_W->process[recruit_W].ycs_values{1999}2.0142.0142.0141.9951.9961.995
prior->YCS_W->process[recruit_W].ycs_values{2000}-0.643-0.643-0.643-0.643-0.643-0.643
prior->YCS_W->process[recruit_W].ycs_values{2001}0.8560.8560.8460.8200.8190.820
prior->YCS_W->process[recruit_W].ycs_values{2002}-0.222-0.222-0.222-0.217-0.214-0.217
prior->YCS_W->process[recruit_W].ycs_values{2003}-0.612-0.612-0.612-0.609-0.608-0.609
prior->YCS_W->process[recruit_W].ycs_values{2004}-0.570-0.570-0.571-0.567-0.566-0.567
prior->YCS_W->process[recruit_W].ycs_values{2005}-0.574-0.574-0.576-0.572-0.572-0.572
prior->YCS_W->process[recruit_W].ycs_values{2006}-0.280-0.280-0.279-0.289-0.288-0.289
prior->YCS_W->process[recruit_W].ycs_values{2007}-0.438-0.438-0.436-0.463-0.463-0.463
prior->YCS_W->process[recruit_W].ycs_values{2008}-0.464-0.464-0.463-0.476-0.476-0.476
prior->YCS_W->process[recruit_W].ycs_values{2009}-0.514-0.514-0.508-0.532-0.531-0.532
prior->YCS_W->process[recruit_W].ycs_values{2010}0.0710.0710.0780.1240.1210.124
prior->YCS_W->process[recruit_W].ycs_values{2011}0.0310.0310.043-0.009-0.009-0.009
prior->YCS_W->process[recruit_W].ycs_values{2012}-0.050-0.050-0.059-0.017-0.015-0.017
prior->YCS_W->process[recruit_W].ycs_values{2013}-0.489-0.489-0.490-0.415-0.416-0.415
prior->YCS_W->process[recruit_W].ycs_values{2014}1.7301.7301.7421.6011.5981.601
prior->YCS_W->process[recruit_W].ycs_values{2015}1.6811.6811.6871.6601.6621.660
prior->YCS_W->process[recruit_W].ycs_values{2016}0.3630.3640.3730.5540.5560.554
prior->sel_Whome->selectivity[sel_Whome].v{1}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{2}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{3}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{4}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{5}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{6}            0.0000.0000.0000.0000.0000.000
prior->sel_Whome->selectivity[sel_Whome].v{7}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{1}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{2}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{3}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{4}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{5}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{6}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{7}            0.0000.0000.0000.0000.0000.000
prior->sel_Espmg_male->selectivity[sel_Espmg].v{8}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{1}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{2}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{3}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{4}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{5}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{6}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{7}            0.0000.0000.0000.0000.0000.000
prior->sel_Wspmg_male->selectivity[sel_Wspmg].v{8}            0.0000.0000.0000.0000.0000.000
prior->Enspsl_mu->selectivity[Enspsl].mu              0.0000.0000.0000.0000.0000.000
prior->Enspsl_s_l->selectivity[Enspsl].sigma_l         0.0000.0000.0000.0000.0000.000
prior->Enspsl_s_r->selectivity[Enspsl].sigma_r         0.0000.0000.0000.0000.0000.000
prior->Wnspsl_mu->selectivity[Wnspsl].mu              0.0000.0000.0000.0000.0000.000
prior->Wnspsl_s_l->selectivity[Wnspsl].sigma_l         0.0000.0000.0000.0000.0000.000
prior->Wnspsl_s_r->selectivity[Wnspsl].sigma_r         0.0000.0000.0000.0000.0000.000
prior->Espsl_mu->selectivity[Espsl].mu              0.0000.0000.0000.0000.0000.000
prior->Espsl_s_l->selectivity[Espsl].sigma_l         0.0000.0000.0000.0000.0000.000
prior->Espsl_s_r->selectivity[Espsl].sigma_r         0.0000.0000.0000.0000.0000.000
prior->CRsl_mu->selectivity[CRsl].mu              0.0000.0000.0000.0000.0000.000
prior->CRsl_s_l->selectivity[CRsl].sigma_l         0.0000.0000.0000.0000.0000.000
prior->CRsl_s_r->selectivity[CRsl].sigma_r         0.0000.0000.0000.0000.0000.000
prior->SAsl_mu->selectivity[SAsl].mu              0.0000.0000.0000.0000.0000.000
prior->SAsl_s_l->selectivity[SAsl].sigma_l         0.0000.0000.0000.0000.0000.000
prior->SAsl_s_r->selectivity[SAsl].sigma_r         0.0000.0000.0000.0000.0000.000
additional_prior->YCS.eq.16              0.0000.0000.0000.0000.0000.000
additional_prior->sp.migr            0.0090.0090.0130.0210.0230.021
jacobian->log_sum_b0                 0.0000.0000.0000.0000.0000.000
total_negloglike                 1946.8101946.8101946.5401954.6801954.6601954.680
total_score                 1946.8101946.8101946.5401954.6801954.6601954.680

## [1] "CASAL base model convergence information"
## [1] "fmm: have converged: t = 8.24015e-007 f = 1946.54"                                                        
## [2] "Successful convergence in optimise"                                                                       
## [3] "Minimiser achieved convergence after 599 quasi-Newton iterations using 669 objective function evaluations"
## [1] ""
## [1] "CASAL sensitivity 1 model convergence information"
## [1] "fmm: step size too small. Indicates successful convergence (though this is not the textbook ideal convergence situation)"
## [2] "Successful convergence in optimise"                                                                                      
## [3] "Minimiser achieved convergence after 665 quasi-Newton iterations using 765 objective function evaluations"               
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on model convergence information"
## [1] "fmm: have converged: t = 8.77772e-07 f = 1946.81"
## [2] "Successful convergence in optimise"              
## [1] ""
## [1] "Casal2 betadiff_casal_flags_off model convergence information"
## [1] "fmm: have converged: t = 8.73289e-07 f = 1946.81"
## [2] "Successful convergence in optimise"              
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on_low_tol model convergence information"
## [1] "fmm: step size too small. Indicates successful convergence (though this is not the textbook ideal convergence situation)"
## [2] "Successful convergence in optimise"                                                                                      
## [1] ""
## [1] "Casal2 adolc_casal_flags_on model convergence information"
## [1] "[IMPORTANT] FMM: Max newton steps (5)"
## [2] "FMM: Max newton steps (5)"            
## [1] ""
## [1] "Casal2 adolc_casal_flags_off model convergence information"
## [1] "[IMPORTANT] FMM: Max newton steps (5)"
## [2] "FMM: Max newton steps (5)"            
## [1] ""
## [1] "Casal2 adolc_casal_flags_on_low_tol model convergence information"
## [1] "[IMPORTANT] FMM: Max newton steps (5)"
## [2] "FMM: Max newton steps (5)"
## [1] "CASAL model warnings"
##                  parameter estimate lower.bound upper.bound
## 1   recruitment[E].YCS[25]     0.06        0.06         8.6
## 2   recruitment[W].YCS[25]     0.06        0.06         8.6
## 3 selectivity[CRsl].all[1]        1           1          17
## 4 selectivity[CRsl].all[2]        1           1          50
## [1] ""
## [1] "CASAL sensitivity 1 model warnings"
##                  parameter estimate lower.bound upper.bound
## 1   recruitment[E].YCS[25]     0.06        0.06         8.6
## 2   recruitment[W].YCS[25]     0.06        0.06         8.6
## 3 selectivity[CRsl].all[1]        1           1          17
## 4 selectivity[CRsl].all[2]        1           1          50
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
##  [7] "estimated parameter 'selectivity[Enspsl].sigma_r' was within 0.001 of upper bound 50"                         
##  [8] "estimated parameter 'selectivity[Wnspsl].sigma_r' was within 0.001 of upper bound 50"                         
##  [9] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
## [10] "estimated parameter 'selectivity[SAsl].sigma_r' was within 0.001 of lower bound 1"                            
## [11] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
## [12] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
## [13] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [14] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [15] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
## [16] "estimated parameter 'selectivity[Enspsl].sigma_r' was within 0.001 of upper bound 50"                         
## [17] "estimated parameter 'selectivity[Wnspsl].sigma_r' was within 0.001 of upper bound 50"                         
## [18] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
## [19] "estimated parameter 'selectivity[SAsl].sigma_r' was within 0.001 of lower bound 1"                            
## [1] ""
## [1] "Casal2 betadiff_casal_flags_off model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
##  [7] "estimated parameter 'selectivity[Enspsl].sigma_r' was within 0.001 of upper bound 50"                         
##  [8] "estimated parameter 'selectivity[Wnspsl].sigma_r' was within 0.001 of upper bound 50"                         
##  [9] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
## [10] "estimated parameter 'selectivity[SAsl].sigma_r' was within 0.001 of lower bound 1"                            
## [11] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
## [12] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
## [13] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [14] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [15] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
## [16] "estimated parameter 'selectivity[Enspsl].sigma_r' was within 0.001 of upper bound 50"                         
## [17] "estimated parameter 'selectivity[Wnspsl].sigma_r' was within 0.001 of upper bound 50"                         
## [18] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
## [19] "estimated parameter 'selectivity[SAsl].sigma_r' was within 0.001 of lower bound 1"                            
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on_low_tol model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
##  [7] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [8] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [9] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [10] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [11] "estimated parameter 'selectivity[CRsl].mu' was within 0.001 of lower bound 1"                                 
## [1] ""
## [1] "Casal2 adolc_casal_flags_on model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
##  [7] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [8] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [9] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [10] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [11] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
## [1] ""
## [1] "Casal2 adolc_casal_flags_off model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
##  [7] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [8] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [9] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [10] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [11] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
## [1] ""
## [1] "Casal2 adolc_casal_flags_on_low_tol model warnings"
##  [1] "Estimates were removed because of matching lower and upper bounds. Originally had 134 estimates, now have 133"
##  [2] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [3] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [4] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [5] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
##  [6] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"                          
##  [7] "estimated parameter 'process[recruit_E].b0' was within 0.001 of upper bound 16.2"                             
##  [8] "estimated parameter 'process[recruit_W].b0' was within 0.001 of upper bound 0.59"                             
##  [9] "estimated parameter 'process[recruit_E].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [10] "estimated parameter 'process[recruit_W].ycs_values{1999}' was within 0.001 of lower bound 0.06"               
## [11] "estimated parameter 'selectivity[sel_Whome].v{7}' was within 0.001 of upper bound 1"

1.5 Matching of outputs

Time series comparisons with CASAL base model results

## [1] "Catch time series base model comparison for run betadiff_casal_flags_on"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""
## [1] "Catch time series base model comparison for run betadiff_casal_flags_off"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""
## [1] "Catch time series base model comparison for run betadiff_casal_flags_on_low_tol"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_on"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_off"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_on_low_tol"
## [1] "Actual catches for Ensp1 match: yes"
## [1] "Actual catches for Wnsp1 match: yes"
## [1] "Actual catches for Ensp2 match: yes"
## [1] "Actual catches for Wnsp2 match: yes"
## [1] "Actual catches for Esp match: yes"
## [1] "Actual catches for Wsp match: yes"
## [1] ""

Derived quantities

SB0, SBcurrent, MSY, F_MSY, others…

1.6 Plots

Comparison plots

## [1] "CASAL base parameter correlation range (excluding 1.0): -0.9914 0.9969"

## [1] "CASAL sensitivity 1 parameter correlation range (excluding 1.0): -0.9324 0.9968"

## [1] "Casal2 betadiff_casal_flags_on parameter correlation range (excluding 1.0): -0.890942874908357 0.996776606630884"
## Warning in min(x): no non-missing arguments to min; returning Inf
## Warning in max(x): no non-missing arguments to max; returning -Inf

## [1] "Casal2 betadiff_casal_flags_off parameter correlation range (excluding 1.0): Inf -Inf"

## [1] "Casal2 betadiff_casal_flags_on_low_tol parameter correlation range (excluding 1.0): -0.939452660139753 0.996798182627236"

## [1] "Casal2 adolc_casal_flags_on parameter correlation range (excluding 1.0): -0.883243800438931 0.996698553552037"

## [1] "Casal2 adolc_casal_flags_off parameter correlation range (excluding 1.0): -0.887199176292272 0.996753693490936"

## [1] "Casal2 adolc_casal_flags_on_low_tol parameter correlation range (excluding 1.0): -0.928187528764059 0.99670453783595"